Cells identified as NA or unknown were not included when calculating
the sum of cells from each patient. The ratio of CD4/CD8 is calculate as
the number of “CD4 T memory” and “CD4 T regulatory” divided by “CD8
T”.
Wilms2:
Wilms3: 0.54
Wilms1: 0.15
|
Cell Number
|
Cell Proportion (%)
|
|||||
|---|---|---|---|---|---|---|
| Wilms2 | Wilms3 | Wilms1 | Wilms2 | Wilms3 | Wilms1 | |
| Age(month) | 8 | 30 | 50 | NA | NA | NA |
| B cell | 0 | 7 | 28 | 0.00 | 0.39 | 1.55 |
| CD4 T memory | 3 | 97 | 13 | 0.17 | 5.41 | 0.72 |
| CD4 T regulatory | 0 | 5 | 8 | 0.00 | 0.28 | 0.44 |
| CD8 T | 0 | 189 | 140 | 0.00 | 10.55 | 7.76 |
| Dendritic cell | 30 | 85 | 54 | 1.69 | 4.74 | 2.99 |
| Endothelium | 33 | 191 | 161 | 1.86 | 10.66 | 8.92 |
| Epithelium | 625 | 235 | 424 | 35.21 | 13.11 | 23.49 |
| Fibroblast | 143 | 443 | 230 | 8.06 | 24.72 | 12.74 |
| M2 Macrophage | 0 | 79 | 21 | 0.00 | 4.41 | 1.16 |
| Mast cell | 242 | 26 | 1 | 13.63 | 1.45 | 0.06 |
| Monocyte | 24 | 100 | 240 | 1.35 | 5.58 | 13.30 |
| NK cell | 390 | 138 | 170 | 21.97 | 7.70 | 9.42 |
| Red blood cell | 170 | 0 | 12 | 9.58 | 0.00 | 0.66 |
| unknown | 115 | 197 | 303 | 6.48 | 10.99 | 16.79 |
| sum | 1775 | 1792 | 1805 | 100.00 | 100.00 | 100.00 |
Cells identified as NA or unknown were not included when calculating
the sum of cells from each patient. The ratio of CD4/CD8 is calculate as
the number of “T cells, CD4+” divided by “T cells, CD8+”.
Wilms2: 0.75
Wilms3: 15.54
Wilms1: 3.73
|
Cell Number
|
Cell Proportion (%)
|
|||||
|---|---|---|---|---|---|---|
| Wilms2 | Wilms3 | Wilms1 | Wilms2 | Wilms3 | Wilms1 | |
| Age(month) | 8 | 30 | 50 | 8.00 | 30.00 | 50.00 |
| B_cell | 0 | 6 | 30 | 0.00 | 0.41 | 1.92 |
| Endothelial_cells | 27 | 167 | 148 | 1.94 | 11.36 | 9.49 |
| Epithelial_cells | 606 | 213 | 272 | 43.60 | 14.49 | 17.44 |
| Macrophage | 8 | 137 | 57 | 0.58 | 9.32 | 3.65 |
| Monocyte | 117 | 132 | 305 | 8.42 | 8.98 | 19.55 |
| Neutrophils | 2 | 6 | 15 | 0.14 | 0.41 | 0.96 |
| NK cells | 517 | 410 | 352 | 37.19 | 27.89 | 22.56 |
| Pre-B_cell_CD34- | 91 | 21 | 28 | 6.55 | 1.43 | 1.79 |
| T cells, CD4+ | 3 | 202 | 183 | 0.22 | 13.74 | 11.73 |
| T cells, CD8+ | 4 | 13 | 49 | 0.29 | 0.88 | 3.14 |
| Tissue_stem_cells | 15 | 163 | 121 | 1.08 | 11.09 | 7.76 |
| sum | 1390 | 1470 | 1560 | 100.00 | 100.00 | 100.00 |
Cells identified as NA or unknown were not included when calculating
the sum of cells from each patient. The ratio of CD4/CD8 is calculate as
the number of “T regulatory” and “Th cell” divided by “CD8 T”.
Wilms2: 5.5
Wilms3: 5.93
Wilms1: 0.9
|
Cell Number
|
Cell Proportion (%)
|
|||||
|---|---|---|---|---|---|---|
| Wilms2 | Wilms3 | Wilms1 | Wilms2 | Wilms3 | Wilms1 | |
| Age(month) | 8 | 30 | 50 | 8.00 | 30.00 | 50.00 |
| B cell | 4 | 6 | 25 | 0.29 | 0.31 | 1.38 |
| CD8 T cell | 2 | 29 | 97 | 0.15 | 1.48 | 5.34 |
| Endothelium | 30 | 160 | 134 | 2.19 | 8.15 | 7.38 |
| Epithelium | 544 | 742 | 530 | 39.71 | 37.82 | 29.19 |
| Erythroblast | 110 | 0 | 0 | 8.03 | 0.00 | 0.00 |
| Fibroblast | 2 | 51 | 14 | 0.15 | 2.60 | 0.77 |
| Mast cell | 16 | 25 | 0 | 1.17 | 1.27 | 0.00 |
| Mononuclear phagocyte | 84 | 105 | 220 | 6.13 | 5.35 | 12.11 |
| Myeloid | 25 | 10 | 11 | 1.82 | 0.51 | 0.61 |
| Nephron_epithelium | 2 | 28 | 22 | 0.15 | 1.43 | 1.21 |
| Neutrophil | 3 | 33 | 19 | 0.22 | 1.68 | 1.05 |
| NK cell | 374 | 54 | 156 | 27.30 | 2.75 | 8.59 |
| NKT cell | 8 | 117 | 25 | 0.58 | 5.96 | 1.38 |
| Normal_cell | 0 | 1 | 5 | 0.00 | 0.05 | 0.28 |
| others | 107 | 140 | 22 | 7.81 | 7.14 | 1.21 |
| Plasma cell | 0 | 1 | 4 | 0.00 | 0.05 | 0.22 |
| Plasmacytoid DC | 26 | 57 | 95 | 1.90 | 2.91 | 5.23 |
| Private | 6 | 101 | 33 | 0.44 | 5.15 | 1.82 |
| Proliferating NK cell | 1 | 0 | 1 | 0.07 | 0.00 | 0.06 |
| Proliferating T cell | 1 | 2 | 0 | 0.07 | 0.10 | 0.00 |
| T regulatory | 0 | 1 | 2 | 0.00 | 0.05 | 0.11 |
| Th cell | 11 | 171 | 85 | 0.80 | 8.72 | 4.68 |
| Tumor | 14 | 128 | 316 | 1.02 | 6.52 | 17.40 |
| sum | 1370 | 1962 | 1816 | 100.00 | 100.00 | 100.00 |
There were 72501 cells passing the quality control in the article, and 11407 of them were sampled from wilms patients. It will be included in this analysis if the cell passed the QC and were from wilms patients.
The first round of annotation followed the pipeline as “clustering –> finding differentially expressed gene –> manual annotation”. As the author instructed, the batch effect between different 10X channels was removed via “harmony”.